Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA1

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
Full media
biomaterial_provider
ATCC
cell line
MCF7
cell type
breast cancer
chip antibody
FOXA1 (ab23738, lot:GR3241520-1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked in adherent conditions, crosslinked cells were lysed to obtain nuclear extracts, lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. NEBNext ChIP-Seq Library Prep Master Mix Set for Illumina (prod. no: E6240L)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
25657710
Reads aligned (%)
97.9
Duplicates removed (%)
5.7
Number of peaks
1348 (qval < 1E-05)

hg19

Number of total reads
25657710
Reads aligned (%)
96.9
Duplicates removed (%)
5.8
Number of peaks
1178 (qval < 1E-05)

Base call quality data from DBCLS SRA